@Article{ Coleman08,
	title = "Virus Attenuation by Genome-Scale Changes in Codon Pair Bias ",
	author = "J. Robert Coleman and Dimitris Papamichail and Steven Skiena and Bruce Futcher and Eckard Wimmer and Steffen Mueller",
	journal = "Science",
	pages = "1784",
	volume = "320",
	month = jun,
	year = "2008"
}

@Article{ Vignuzzi08,
	title = "Engineering attenuated virus vaccines by controlling replication fidelity ",
	author = "Marco Vignuzzi and Emily Wendt and Raul Andino",
	journal = "Nature Medicine",
	pages = "154",
	volume = "14",
	number = "2",
	month = feb,
	year = "2008"
}

@Article{ DeJesus07,
	title = "Epidemics to eradication: the modern history of poliomyelitis",
	author = "Nidia H De Jesus",
	journal = "Virology Journal",
	month = jul,
	year = "2007"
}

@TechReport{ Aylward04,
	author = "R. Bruce Aylward and Stephen L. Cochi",
	title = "Framework for evaluating the risks of paralytic poliomyelitis after global interruption of wild poliovirus transmission",
	institution = "World Health Organization",
	year = "2004"
}

@Article{ Macadam06,
	title = "Rational Design of Genetically Stable, Live-Attenuated Poliovirus Vaccines of All Three Serotypes: Relevance to Poliomyelitis Eradication ",
	author = "Andrew J. Macadam and Geraldine Ferguson and David M. Stone and Janet Meredith and Sarah Knowlson and Ghazi Auda and Jeffrey W. Almond and Philip D. Minor",
	journal = "Journal of Virology",
	volume = "80",
	number = "17",
	month = sep,
	year = "2006"
}

@TechReport{ Chumakov08,
	title = "New Generation of Inactivated Poliovirus Vaccines for Universal Immunization After Eradication of Poliomyelitis ",
	author = "Konstantin Chumakov and Ellie Ehrenfeld",
	institution = "National Institute of Health",
	month = dec,
	year = "2008"
}

@Article{ Lauring10,
	title = "Rationalizing the development of live attenuated virus vaccines",
	author = "Adam S Lauring and Jeremy O Jones and Raul Andino",
	journal = "Nature Biotechnology",
	volume = "28",
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	month = jun,
	year = "2010"
}

@Book{ Hoos04,
	title = "Stochastic Local Search - Foundations and Applications",
	author = {Holger H. Hoos and Thomas St{\"u}tzle},
	publisher = "Morgan Kaufmann / Elsevier",
	year = "2004"
}

@Book{ Clote00,
	title = "Computational Molecular Biology - An Introduction",
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@Article{ Lyngso00,
	title = "RNA Pseudoknot Prediction in Energy Based Models",
	author = "Rune B. Lyngs{\o} and Christian N. S. Pedersen",
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	year = "2000"
}

@TechReport{ msal09,
	title = "Caso de Poliomielitis Sabin derivado en Argentina.",
	author = "Direcci{\'o}n de Epidemiolog{\'i}a. Programa Nacional de Erradicaci{\'o}n de la Poliomielitis",
	institution = "Ministerio de Salud de la Naci{\'o}n",
	month = may,
	year = "2009"
}

@Article{ Philip92,
	title = "The molecular biology of poliovaccines",
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	year = "1992"
}

@Article{ Zuker84,
	title = "RNA secondary structures and their prediction",
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	year = "1984"
}

@Article{ Zuker81,
	title = "Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information ",
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	year = "1981"
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@Article{ Gardner04,
	title = "A comprehensive comparison of comparative RNA structure prediction approaches",
	author = "Paul P Gardner and Robert Giegerich",
	journal = "BMC Bioinformatics",
	month = sep,
	year = "2004"
}

@Article{ Hofacker94,
	title = "Fast folding and comparison of RNA secondary structures",
	author = "I. L. Hofacker and W. Fontana and P. F. Stadler and L. S. Bonhoeffer and M. Tacker and P. Schuster",
	journal = {Monatshefte f{\"u}r Chemie},
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	number = "2",
	year = "1994"
}

@Article{ Andronescu03,
	title = "RNAsoft: a suite of RNA secondary structure prediction and design software tools",
	author = "Mirela Andronescu and Rosalia Aguirre-Hernandez and Anne Condon and Holger H. Hoos",
	journal = "Nucleic Acids Research",
	volume = "31",
	number = "13",
	month = apr,
	year = "2003"
}

@Article{ Busch07,
	title = "INFO-RNA - A Server for Fast Inverse RNA Folding Satisfying Sequence Constraints",
	author = "Anke Busch and Rolf Backofen",
	journal = "Nucleic Acids Research",
	month = mar,
	year = "2007"
}

@Article{ Badgett02,
	title = "Evolutionary Dynamics of Viral Attenuation",
	author = "Marty R. Badgett and Alexandra Auer and Leland E. Carmichael and Colin R. Parrish and James J. Bull",
	journal = "Journal of Virology",
	volume = "76",
	number = "20",
	month = oct,
	year = "2002"
}

@Article{ Mueller10,
	title = "Live attenuated influenza virus vaccines by computer-aided rational design",
	author = "Steffen Mueller and J Robert Coleman and Dimitris Papamichail and Charles B Ward and Anjaruwee Nimnual and Bruce Futcher and Steven Skiena and Eckard Wimmer",
	journal = "Nature Biotechnology",
	volume = "28",
	number = "7",
	month = jul,
	year = "2010"
}

@Misc{ Martin00,
	title = "Design Principles and Design Patterns",
	author = "Robert C. Martin",
	howpublished = "www.objectmentor.com",
	year = "2000"
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@Book{ Wirfs03,
	title = "Object Design: Roles, Responsibilities and Collaborations",
	author = "Rebecca Wirfs-Brock and Alan McKean",
	publisher = "Addison-Wesley",
	year = "2003"
}

@Book{ Gamma95,
	title = "Design Patterns Elements of Reusable Object-Oriented Software",
	author = "Erich Gamma and Richard Helm and Ralph Johnson and John Vlissides",
	publisher = "Addison-Wesley",
	month = jan,
	year = "2005"
}

@PhDThesis{ Hochsmann05,
	title = "The Tree Alignment Model: Algorithms, Implementations and Applications for the Analysis of RNA Secondary Structures",
	author = {Matthias H{\"o}chsmann},
	school = {Technischen Fakult{\"a}t der Universit{\"a}t Bielefeld},
	month = mar,
	year = "2005"
}

@Book{ Mcconnell96,
	title = "Rapid Development: taming wild software schedules",
	author = "Steve McConnell",
	publisher = "Microsoft Press",	
	year = "1996"
}

